Use roxygen for functions and methods

1 files changed, 53 insertions, 65 deletions

diff --git a/man/mkinerrplot.Rd b/man/mkinerrplot.Rd
index 37338d01..3c53e7f8 100644
--- a/man/mkinerrplot.Rd
+++ b/man/mkinerrplot.Rd
@@ -1,81 +1,69 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/mkinerrplot.R
 \name{mkinerrplot}
 \alias{mkinerrplot}
-\title{
-  Function to plot squared residuals and the error model for an mkin object
-}
-\description{
-  This function plots the squared residuals for the specified subset of the
-  observed variables from an mkinfit object. In addition, one or more
-  dashed line(s) show the fitted error model.
-  A combined plot of the fitted model and this error model plot can be
-  obtained with \code{\link{plot.mkinfit}}
-  using the argument \code{show_errplot = TRUE}.
-}
+\title{Function to plot squared residuals and the error model for an mkin object}
 \usage{
-  mkinerrplot(object,
-    obs_vars = names(object$mkinmod$map),
-    xlim = c(0, 1.1 * max(object$data$predicted)),
-    xlab = "Predicted", ylab = "Squared residual",
-    maxy = "auto", legend= TRUE, lpos = "topright",
-    col_obs = "auto", pch_obs = "auto",
-    frame = TRUE,
-    ...)
+mkinerrplot(object, obs_vars = names(object$mkinmod$map), xlim = c(0,
+  1.1 * max(object$data$predicted)), xlab = "Predicted",
+  ylab = "Squared residual", maxy = "auto", legend = TRUE,
+  lpos = "topright", col_obs = "auto", pch_obs = "auto",
+  frame = TRUE, ...)
 }
 \arguments{
-  \item{object}{
-    A fit represented in an \code{\link{mkinfit}} object.
-  }
-  \item{obs_vars}{
-    A character vector of names of the observed variables for which residuals
-    should be plotted. Defaults to all observed variables in the model
-  }
-  \item{xlim}{
-    plot range in x direction.
-  }
-  \item{xlab}{
-    Label for the x axis.
-  }
-  \item{ylab}{
-    Label for the y axis.
-  }
-  \item{maxy}{
-    Maximum value of the residuals. This is used for the scaling of
-    the y axis and defaults to "auto".
-  }
-  \item{legend}{
-    Should a legend be plotted?
-  }
-  \item{lpos}{
-    Where should the legend be placed? Default is "topright". Will be passed on to
-    \code{\link{legend}}.
-  }
-  \item{col_obs}{
-    Colors for the observed variables.
-  }
-  \item{pch_obs}{
-    Symbols to be used for the observed variables.
-  }
-  \item{frame}{
-    Should a frame be drawn around the plots?
-  }
-  \item{\dots}{
-   further arguments passed to \code{\link{plot}}.
-  }
+\item{object}{A fit represented in an \code{\link{mkinfit}} object.}
+
+\item{obs_vars}{A character vector of names of the observed variables for
+which residuals should be plotted. Defaults to all observed variables in
+the model}
+
+\item{xlim}{plot range in x direction.}
+
+\item{xlab}{Label for the x axis.}
+
+\item{ylab}{Label for the y axis.}
+
+\item{maxy}{Maximum value of the residuals. This is used for the scaling of
+the y axis and defaults to "auto".}
+
+\item{legend}{Should a legend be plotted?}
+
+\item{lpos}{Where should the legend be placed? Default is "topright". Will
+be passed on to \code{\link{legend}}.}
+
+\item{col_obs}{Colors for the observed variables.}
+
+\item{pch_obs}{Symbols to be used for the observed variables.}
+
+\item{frame}{Should a frame be drawn around the plots?}
+
+\item{\dots}{further arguments passed to \code{\link{plot}}.}
 }
 \value{
-  Nothing is returned by this function, as it is called for its side effect, namely to produce a plot.
+Nothing is returned by this function, as it is called for its side
+  effect, namely to produce a plot.
 }
-\author{
-  Johannes Ranke
+\description{
+This function plots the squared residuals for the specified subset of the
+observed variables from an mkinfit object. In addition, one or more dashed
+line(s) show the fitted error model.  A combined plot of the fitted model
+and this error model plot can be obtained with \code{\link{plot.mkinfit}}
+using the argument \code{show_errplot = TRUE}.
 }
-\seealso{
- \code{\link{mkinplot}}, for a way to plot the data and the fitted lines of the
- mkinfit object.  }
 \examples{
+
 \dontrun{
 model <- mkinmod(parent = mkinsub("SFO", "m1"), m1 = mkinsub("SFO"))
 fit <- mkinfit(model, FOCUS_2006_D, error_model = "tc", quiet = TRUE)
 mkinerrplot(fit)
 }
+
+}
+\seealso{
+\code{\link{mkinplot}}, for a way to plot the data and the fitted
+  lines of the mkinfit object.
+}
+\author{
+Johannes Ranke
 }
-\keyword{ hplot }
+\keyword{hplot}